Hi, JJB:
Thanks. Upon reading more carefully
"https://cran.r-project.org/bin/macosx/tools/";, I see that I need
clang7, not the clang8 that I previously installed. I downloaded and
installed it, but I'm confused about how to modify my path, and I'm
still getting the same error as before without that. I don't recall
ever modifying a path on a Mac before, and I don't find the
"~/.Renviron" file you mentioned.
Thanks,
Spencer Graves
p.s. I'm also a little spooked by your instructions to remove gfortran,
because it might be used by something else. I don't find
"/usr/local/gfortran" that you mention, but I do find files (not
folders) "/usr/local/bin/gfortran" and "/usr/local/bin/gfortran-4.8".
??? Thanks again.
On 2019-05-07 08:56, Balamuta, James Joseph wrote:
Greetings and Salutations All,
For R 3.6.x, you want:
https://cran.r-project.org/bin/macosx/tools/clang-7.0.0.pkg
To let R know about the complier, we need to modify the ~/.Renviron. You may need
to create the file by running in Terminal (Applications -> Utilities):
touch ~/.Renviron
Then, inside of ~/.Renviron add:
PATH="/usr/local/clang7/bin:${PATH}"
More details can be found here (disclaimer: I wrote it):
http://thecoatlessprofessor.com/programming/r-compiler-tools-for-rcpp-on-macos/
I'm working on updating a bash-script installer to autodetect and install the
appropriate toolchain based on the installed version of R here:
https://github.com/rmacoslib/r-macos-rtools
I'll update the list-serv when I've released a new version for R 3.6.x.
Sincerely,
JJB
On 5/7/19, 8:34 AM, "R-SIG-Mac on behalf of Spencer Graves"
<r-sig-mac-boun...@r-project.org on behalf of spencer.gra...@prodsyse.com> wrote:
Hi, Bryon et al.:
Thanks. I did that and got virtually the same response ending
with "clang: error: unsupported option '-fopenmp'".
Specifically, I started by looking for a "clang" subdirectory
under "/usr/local/", which is where clang-8.0.0.pkg from
"https://cran.r-project.org/bin/macosx/tools/"; installed. I did not
find one. I then downloaded and installed Clang8, and it appeared in
directory "/usr/local/clang8". I then rebooted and tried "R CMD build
bssm" as before with the following results:
> R CMD build bssm
* checking for file ‘bssm/DESCRIPTION’ ... OK
* preparing ‘bssm’:
* checking DESCRIPTION meta-information ... OK
* cleaning src
* installing the package to build vignettes
-----------------------------------
* installing *source* package ‘bssm’ ...
** using staged installation
** libs
clang++ -std=gnu++11
-I"/Library/Frameworks/R.framework/Resources/include" -DNDEBUG
-I"/Library/Frameworks/R.framework/Versions/3.6/Resources/library/BH/include"
-I"/Library/Frameworks/R.framework/Versions/3.6/Resources/library/Rcpp/include"
-I"/Library/Frameworks/R.framework/Versions/3.6/Resources/library/RcppArmadillo/include"
-I"/Library/Frameworks/R.framework/Versions/3.6/Resources/library/ramcmc/include"
-I"/Library/Frameworks/R.framework/Versions/3.6/Resources/library/sitmo/include"
-isysroot /Library/Developer/CommandLineTools/SDKs/MacOSX.sdk
-I/usr/local/include -fopenmp -fPIC -Wall -g -O2 -c R_approx.cpp -o
R_approx.o
clang: error: unsupported option '-fopenmp'
make: *** [R_approx.o] Error 1
ERROR: compilation failed for package ‘bssm’
* removing
‘/private/var/folders/mh/mrm_14nx19g13lsnj9zmvwjr0000gn/T/Rtmp7TLdXk/Rinst6842b1d5fb3/bssm’
-----------------------------------
ERROR: package installation failed
Suggestions?
Thanks,
Spencer
On 2019-05-06 18:19, Byron Ellis wrote:
> Hi Spencer,
>
> You'll want to get the compiler tools from
> https://cran.r-project.org/bin/macosx/tools/ to build properly.
>
> Best,
> B
>
>
>
> On Mon, May 6, 2019 at 4:17 PM Spencer Graves
> <spencer.gra...@prodsyse.com <mailto:spencer.gra...@prodsyse.com>> wrote:
>
> Hello, All:
>
>
> I'm getting "clang: error: unsupported option '-fopenmp'" when
> trying to build "https://github.com/helske/bssm"; under macOS 10.14.14
> with R 3.6.0; see below.
>
>
> What do you suggest?
>
>
> Thanks,
> Spencer Graves
>
>
> p.s. Helske told me he thought my compiler was out of date. However,
> I've so far been unable to find instructions that are sufficiently
> current to convince me I might not do more harm than good
> following them.
>
>
> > R CMD build bssm
> * checking for file ‘bssm/DESCRIPTION’ ... OK
> * preparing ‘bssm’:
> * checking DESCRIPTION meta-information ... OK
> * cleaning src
> * installing the package to build vignettes
> -----------------------------------
> * installing *source* package ‘bssm’ ...
> ** using staged installation
> ** libs
> clang++ -std=gnu++11
> -I"/Library/Frameworks/R.framework/Resources/include" -DNDEBUG
>
-I"/Library/Frameworks/R.framework/Versions/3.6/Resources/library/BH/include"
>
>
-I"/Library/Frameworks/R.framework/Versions/3.6/Resources/library/Rcpp/include"
>
>
-I"/Library/Frameworks/R.framework/Versions/3.6/Resources/library/RcppArmadillo/include"
>
>
-I"/Library/Frameworks/R.framework/Versions/3.6/Resources/library/ramcmc/include"
>
>
-I"/Library/Frameworks/R.framework/Versions/3.6/Resources/library/sitmo/include"
>
> -isysroot /Library/Developer/CommandLineTools/SDKs/MacOSX.sdk
> -I/usr/local/include -fopenmp -fPIC -Wall -g -O2 -c R_approx.cpp -o
> R_approx.o
> clang: error: unsupported option '-fopenmp'
> make: *** [R_approx.o] Error 1
> ERROR: compilation failed for package ‘bssm’
> * removing
>
‘/private/var/folders/mh/mrm_14nx19g13lsnj9zmvwjr0000gn/T/RtmppA2gBg/Rinst24427c5cbfeb/bssm’
> -----------------------------------
> ERROR: package installation failed
>
> _______________________________________________
> R-SIG-Mac mailing list
> R-SIG-Mac@r-project.org <mailto:R-SIG-Mac@r-project.org>
> https://stat.ethz.ch/mailman/listinfo/r-sig-mac
>
>
>
> --
> Byron Ellis (byron.el...@gmail.com <mailto:byron.el...@gmail.com>)
> "Oook" -- The Librarian
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